Locus 1572

Sequence ID 3L_DroMel_CAF1
Location 4,581,769 – 4,581,886
Length 117
Max. P 0.617714
window2438

overview

Window 8

Location 4,581,769 – 4,581,886
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 94.18
Mean single sequence MFE -27.16
Consensus MFE -23.00
Energy contribution -21.92
Covariance contribution -1.08
Combinations/Pair 1.18
Mean z-score -1.32
Structure conservation index 0.85
SVM decision value 0.17
SVM RNA-class probability 0.617714
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4581769 117 + 23771897
GUUCGACAAAGAAAGAGCAACAGUUGAUGGACUGGCGAUGGGAUAAAGUGAUAGGGUAAUAUGCUAGUAAUGCUAUCACAACAGCUUGUAAAGAUGAAUGAGUGCUUUUCAUUGUUA
((((..........))))..(((((....)))))((((((..(....(((((((.((.((......)).)).)))))))....(((..(........)..)))...)..)))))).. ( -27.50)
>DroSec_CAF1 158563 117 + 1
GUUCGACAAAGAAAGAGCAACAGUUGAUGGGCUGGCGAUGGGAUAAAGUGAUAGGGUAAUAUGCUAGUAAUGCUAUCACAACAGCUUGCAAAGAUGAAUGAGUGCUUUUCAUUGUUA
....(((((.(((.(((((.((.(((.(((((((.(....)......(((((((.((.((......)).)).)))))))..))))))))))...))......)))))))).))))). ( -27.40)
>DroSim_CAF1 158920 117 + 1
GUUCGACAAAGAAAGAGCAACAGUUGAUGGGCUGGCGAUGGGAUAAAGUGAUAGGGUAAUAUGCUAGUAAUGCUAUCACAACAGCUUGCAAAGAUGAAUGAGUGCUUUUCAUUGUUA
....(((((.(((.(((((.((.(((.(((((((.(....)......(((((((.((.((......)).)).)))))))..))))))))))...))......)))))))).))))). ( -27.40)
>DroEre_CAF1 166751 115 + 1
GUUCAACAAAGAAAGAGCAACAGUUGAUGGGCUGGCGAUGGGAUAAAGUGAUAGGGUAAUAUGCUAAUAAUGUUAUC--AACAGCUUGUAAAGAUGAAUGAGUGUCCUUCAUUGUUG
...((((((.(((.(..((...(((.(..(((((..(((((.((..(((.(((......))))))....)).)))))--..)))))..)...))).......))..)))).)))))) ( -24.10)
>DroYak_CAF1 163828 115 + 1
GUUCAACAAAGAACGAGCAACAGUUGAUGGGCUGGCGAUGGGAUGAAGUGAUAGGGUAAUAUGCUAGUAAUGUUAUC--AACAGCUUGUAAAGAUGAAUGAGUGUUCUUCAUUGUUG
...((((((((((((..((...(((.(..(((((..(((((.((..(((.(((......))))))....)).)))))--..)))))..)...)))...))..))))))...)))))) ( -29.40)
>consensus
GUUCGACAAAGAAAGAGCAACAGUUGAUGGGCUGGCGAUGGGAUAAAGUGAUAGGGUAAUAUGCUAGUAAUGCUAUCACAACAGCUUGUAAAGAUGAAUGAGUGCUUUUCAUUGUUA
....(((((.(((.(((((...(((.((..((.(((.....((((..((..(((.((...)).)))...))..))))......))).))....)).)))...)))))))).))))). (-23.00 = -21.92 +  -1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:57 2006